Alternatives and similar repositories for GASAL2

Users that are interested in GASAL2 are comparing it to the libraries listed below

• quim0 / WFA-GPU
  GPU implementation of the Wavefront Alignment Algorithm for global, gap-affine, pairwise sequence alginment
  ☆34Updated 2 weeks ago
• gsneha26 / SegAlign
  A Scalable GPU-Based Whole Genome Aligner, published in SC20: https://doi.ieeecomputersociety.org/10.1109/SC41405.2020.00043
  ☆71Updated 9 months ago
• lh3 / ksw2
  Global alignment and alignment extension
  ☆131Updated last year
• asbschmidt / CUDASW4
  CUDASW++4.0: Ultra-fast GPU-based Smith-Waterman Protein Sequence Database Search
  ☆36Updated 6 months ago
• minhhpham / bwa
  Burrow-Wheeler Aligner for short-read alignment (see minimap2 for long-read alignment)
  ☆17Updated last year
• NVIDIA-Genomics-Research / DL4VC
  ☆11Updated 5 years ago
• RWilton / Arioc
  Arioc: GPU-accelerated DNA short-read alignment
  ☆69Updated 4 months ago
• NVIDIA / VariantWorks
  Deep Learning based variant calling toolkit - https://clara-parabricks.github.io/VariantWorks/
  ☆45Updated 2 years ago
• refresh-bio / agc
  Assembled Genomes Compressor
  ☆162Updated 5 months ago
• EIHealth-Lab / fast-bonito
  ☆25Updated 4 years ago
• CMU-SAFARI / Scrooge
  Scrooge is a high-performance pairwise sequence aligner based on the GenASM algorithm. Scrooge includes three novel algorithmic improveme…
  ☆37Updated last year
• smarco / WFA2-lib
  WFA-lib: Wavefront alignment algorithm library v2
  ☆185Updated 3 weeks ago
• ocxtal / libgaba
  Adaptive semi-global banded alignment on string graphs
  ☆66Updated 7 years ago
• yangao07 / abPOA
  abPOA: an SIMD-based C library for fast partial order alignment using adaptive band
  ☆122Updated last week
• PASSIONLab / BELLA
  BELLA: a Computationally-Efficient and Highly-Accurate Long-Read to Long-Read Aligner and Overlapper
  ☆48Updated 2 years ago
• GATB / gatb-core
  Core library of the Genome Analysis Toolbox with de-Bruijn graph
  ☆63Updated 3 months ago
• mateidavid / fast5
  A C++ header-only library for reading Oxford Nanopore Fast5 files
  ☆53Updated 2 years ago
• Martinsos / opal
  SIMD C/C++ library for massive optimal sequence alignment (local/SW, infix, overlap, global)
  ☆38Updated last year
• sfu-compbio / mrsfast
  mrsFAST: micro-read substitution-only Fast Alignment Search Tool
  ☆28Updated 4 years ago
• vgteam / graph-genomics-review
  Pangenome graphs (review article on graph-based pangenomic methods)
  ☆72Updated 5 years ago
• TravisWheelerLab / AvxWindowFmIndex
  A fast, AVX2 and ARM Neon accelerated FM index library
  ☆32Updated 5 months ago
• WGLab / NanoCaller
  Variant calling tool for long-read sequencing data
  ☆109Updated last month
• rvaser / spoa
  SIMD partial order alignment tool/library
  ☆170Updated last year
• CMU-SAFARI / BLEND
  BLEND is a mechanism that can efficiently find fuzzy seed matches between sequences to significantly improve the performance and accuracy…
  ☆43Updated 2 years ago
• bcgsc / ntCard
  Estimating k-mer coverage histogram of genomics data
  ☆78Updated last year
• UCLA-VAST / minimap2-acceleration
  Hardware Acceleration of Long Read Pairwise Overlapping in Genome Sequencing: Open Source Repository
  ☆33Updated 6 months ago
• jeffdaily / parasail-python
  Python bindings for the parasail C library.
  ☆100Updated 8 months ago
• CMU-SAFARI / RawHash
  RawHash can accurately and efficiently map raw nanopore signals to reference genomes of varying sizes (e.g., from viral to a human genome…
  ☆56Updated 5 months ago
• OpenHero / gblastn
  G-BLASTN is a GPU-accelerated nucleotide alignment tool based on the widely used NCBI-BLAST.
  ☆65Updated 2 years ago
• hasindu2008 / slow5lib
  slow5lib is a software library for reading & writing SLOW5 files.
  ☆43Updated 3 months ago